CR conserved pathway with deep learning

Classification:  Yeast deletion with CR effect: extend or shorten lifespan

Input: double deletion genetic interactions

neural networks: DCell or a hypothesis-based-graph model

CR prot GO results, top 0.5% of Dang's ratio

These data can be used set up simulation studies.

CR.O.Y	NR.O.Y	Y.CR.NR	GOid	GODBterms	GOtypes

1	0	0	1	GO:0000122	negative regulation of transcription by RNA polymerase II	BP
2	1	0	0	GO:0000124	SAGA complex	CC
3	1	1	0	GO:0000132	establishment of mitotic spindle orientation	BP
4	0	1	0	GO:0000166	nucleotide binding	MF
5	0	0	1	GO:0000183	chromatin silencing at rDNA	BP
6	1	0	0	GO:0000288	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	BP
7	0	0	1	GO:0000290	deadenylation-dependent decapping of nuclear-transcribed mRNA	BP
8	0	1	0	GO:0000715	nucleotide-excision repair, DNA damage recognition	BP
9	1	1	0	GO:0000724	double-strand break repair via homologous recombination	BP
10	0	1	0	GO:0000725	recombinational repair	BP
11	0	1	0	GO:0001302	replicative cell aging	BP
12	0	0	1	GO:0001401	mitochondrial sorting and assembly machinery complex	CC
13	1	0	0	GO:0001403	invasive growth in response to glucose limitation	BP
14	0	0	1	GO:0001405	PAM complex, Tim23 associated import motor	CC
15	0	0	1	GO:0001558	regulation of cell growth	BP
16	0	0	1	GO:0003684	damaged DNA binding	MF
17	1	0	0	GO:0003743	translation initiation factor activity	MF
18	0	1	0	GO:0003824	catalytic activity	MF
19	1	0	0	GO:0004088	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity	MF
20	1	1	0	GO:0004359	glutaminase activity	MF
21	1	1	0	GO:0004679	AMP-activated protein kinase activity	MF
22	0	1	0	GO:0004713	protein tyrosine kinase activity	MF
23	0	1	1	GO:0004721	phosphoprotein phosphatase activity	MF
24	0	0	1	GO:0004722	protein serine/threonine phosphatase activity	MF
25	0	1	0	GO:0004819	glutamine-tRNA ligase activity	MF
26	0	1	0	GO:0004842	ubiquitin-protein transferase activity	MF
27	1	0	0	GO:0005085	guanyl-nucleotide exchange factor activity	MF
28	0	0	1	GO:0005515	protein binding	MF
29	0	1	0	GO:0005575	cellular_component	CC
30	1	1	0	GO:0005641	nuclear envelope lumen	CC
31	1	0	0	GO:0005669	transcription factor TFIID complex	CC
32	1	0	0	GO:0005680	anaphase-promoting complex	CC
33	0	0	1	GO:0005739	mitochondrion	CC
34	0	0	1	GO:0005741	mitochondrial outer membrane	CC
35	0	0	1	GO:0005743	mitochondrial inner membrane	CC
36	0	1	0	GO:0005777	peroxisome	CC
37	0	1	0	GO:0005778	peroxisomal membrane	CC
38	1	1	0	GO:0005847	mRNA cleavage and polyadenylation specificity factor complex	CC
39	1	0	0	GO:0005851	eukaryotic translation initiation factor 2B complex	CC
40	0	0	1	GO:0005938	cell cortex	CC
41	1	1	0	GO:0006281	DNA repair	BP
42	0	1	0	GO:0006303	double-strand break repair via nonhomologous end joining	BP
43	1	1	0	GO:0006310	DNA recombination	BP
44	0	1	0	GO:0006425	glutaminyl-tRNA aminoacylation	BP
45	1	1	1	GO:0006446	regulation of translational initiation	BP
46	1	1	0	GO:0006501	C-terminal protein lipidation	BP
47	1	1	0	GO:0006511	ubiquitin-dependent protein catabolic process	BP
48	1	0	0	GO:0006520	cellular amino acid metabolic process	BP
49	1	1	0	GO:0006541	glutamine metabolic process	BP
50	0	0	1	GO:0006626	protein targeting to mitochondrion	BP
51	0	0	1	GO:0006850	mitochondrial pyruvate transmembrane transport	BP
52	0	1	0	GO:0006890	retrograde vesicle-mediated transport, Golgi to ER	BP
53	1	1	0	GO:0006974	cellular response to DNA damage stimulus	BP
54	1	1	0	GO:0006995	cellular response to nitrogen starvation	BP
55	0	1	0	GO:0007031	peroxisome organization	BP
56	1	0	0	GO:0007118	budding cell apical bud growth	BP
57	1	1	0	GO:0007155	cell adhesion	BP
58	0	1	0	GO:0007535	donor selection	BP
59	1	0	0	GO:0008047	enzyme activator activity	MF
60	1	1	0	GO:0008094	DNA-dependent ATPase activity	MF
61	1	0	0	GO:0008152	metabolic process	BP
62	0	0	1	GO:0008320	protein transmembrane transporter activity	MF
63	1	1	0	GO:0008614	pyridoxine metabolic process	BP
64	1	1	0	GO:0008615	pyridoxine biosynthetic process	BP
65	0	0	1	GO:0010507	negative regulation of autophagy	BP
66	0	0	1	GO:0016242	negative regulation of macroautophagy	BP
67	1	0	0	GO:0016281	eukaryotic translation initiation factor 4F complex	CC
68	0	0	1	GO:0016301	kinase activity	MF
69	0	1	0	GO:0016559	peroxisome fission	BP
70	0	1	0	GO:0016567	protein ubiquitination	BP
71	1	0	0	GO:0016578	histone deubiquitination	BP
72	1	1	0	GO:0016593	Cdc73/Paf1 complex	CC
73	1	0	0	GO:0016787	hydrolase activity	MF
74	1	1	0	GO:0016829	lyase activity	MF
75	1	0	0	GO:0017148	negative regulation of translation	BP
76	1	0	0	GO:0018016	N-terminal peptidyl-proline dimethylation	BP
77	0	1	0	GO:0018108	peptidyl-tyrosine phosphorylation	BP
78	1	1	0	GO:0019005	SCF ubiquitin ligase complex	CC
79	1	1	0	GO:0019776	Atg8 ligase activity	MF
80	1	1	1	GO:0019867	outer membrane	CC
81	0	0	1	GO:0030037	actin filament reorganization involved in cell cycle	BP
82	0	0	1	GO:0030061	mitochondrial crista	CC
83	0	0	1	GO:0030150	protein import into mitochondrial matrix	BP
84	0	0	1	GO:0030170	pyridoxal phosphate binding	MF
85	1	1	1	GO:0030234	enzyme regulator activity	MF
86	0	1	0	GO:0030433	ubiquitin-dependent ERAD pathway	BP
87	0	0	1	GO:0030466	chromatin silencing at silent mating-type cassette	BP
88	0	0	1	GO:0031234	extrinsic component of cytoplasmic side of plasma membrane	CC
89	1	1	0	GO:0031297	replication fork processing	BP
90	0	0	1	GO:0031305	integral component of mitochondrial inner membrane	CC
91	0	0	1	GO:0031307	integral component of mitochondrial outer membrane	CC
92	1	1	0	GO:0031588	nucleotide-activated protein kinase complex	CC
93	0	0	1	GO:0031929	TOR signaling	BP
94	0	0	1	GO:0031930	mitochondria-nucleus signaling pathway	BP
95	0	0	1	GO:0031931	TORC1 complex	CC
96	0	0	1	GO:0031932	TORC2 complex	CC
97	1	0	0	GO:0032045	guanyl-nucleotide exchange factor complex	CC
98	0	0	1	GO:0032079	positive regulation of endodeoxyribonuclease activity	BP
99	0	1	0	GO:0032581	ER-dependent peroxisome organization	BP
100	0	0	1	GO:0032931	histone acetyltransferase activity (H3-K56 specific)	MF
101	1	1	0	GO:0034045	phagophore assembly site membrane	CC
102	1	1	0	GO:0034270	Cvt complex	CC
103	1	1	0	GO:0034274	Atg12-Atg5-Atg16 complex	CC
104	1	1	1	GO:0034622	cellular protein-containing complex assembly	BP
105	1	1	0	GO:0034629	cellular protein-containing complex localization	BP
106	0	0	1	GO:0035025	positive regulation of Rho protein signal transduction	BP
107	1	1	0	GO:0035361	Cul8-RING ubiquitin ligase complex	CC
108	1	1	0	GO:0036381	pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity	MF
109	0	0	1	GO:0038202	TORC1 signaling	BP
110	0	0	1	GO:0042026	protein refolding	BP
111	0	1	0	GO:0042162	telomeric DNA binding	MF
112	0	0	1	GO:0042407	cristae formation	BP
113	0	0	1	GO:0042645	mitochondrial nucleoid	CC
114	0	1	0	GO:0042803	protein homodimerization activity	MF
115	1	1	0	GO:0042819	vitamin B6 biosynthetic process	BP
116	1	1	0	GO:0042823	pyridoxal phosphate biosynthetic process	BP
117	1	0	0	GO:0043085	positive regulation of catalytic activity	BP
118	0	0	1	GO:0043161	proteasome-mediated ubiquitin-dependent protein catabolic process	BP
119	0	0	1	GO:0043335	protein unfolding	BP
120	0	0	1	GO:0043433	negative regulation of DNA-binding transcription factor activity	BP
121	0	1	0	GO:0043564	Ku70:Ku80 complex	CC
122	0	0	1	GO:0044237	cellular metabolic process	BP
123	0	0	1	GO:0044284	mitochondrial crista junction	CC
124	0	0	1	GO:0044387	negative regulation of protein kinase activity by regulation of protein phosphorylation	BP
125	0	1	1	GO:0044877	protein-containing complex binding	MF
126	1	1	1	GO:0045040	protein import into mitochondrial outer membrane	BP
127	1	1	0	GO:0045144	meiotic sister chromatid segregation	BP
128	0	1	0	GO:0045454	cell redox homeostasis	BP
129	1	1	0	GO:0045722	positive regulation of gluconeogenesis	BP
130	0	0	1	GO:0045807	positive regulation of endocytosis	BP
131	1	0	0	GO:0046695	SLIK (SAGA-like) complex	CC
132	0	0	1	GO:0050833	pyruvate transmembrane transporter activity	MF
133	1	1	0	GO:0061608	nuclear import signal receptor activity	MF
134	0	0	1	GO:0061617	MICOS complex	CC
135	1	1	0	GO:0061630	ubiquitin protein ligase activity	MF
136	0	1	0	GO:0070006	metalloaminopeptidase activity	MF
137	0	0	1	GO:0070086	ubiquitin-dependent endocytosis	BP
138	0	0	1	GO:0070180	large ribosomal subunit rRNA binding	MF
139	0	0	1	GO:0070628	proteasome binding	MF
140	1	0	0	GO:0070816	phosphorylation of RNA polymerase II C-terminal domain	BP
141	0	1	0	GO:0070940	dephosphorylation of RNA polymerase II C-terminal domain	BP
142	0	0	1	GO:0071243	cellular response to arsenic-containing substance	BP
143	0	0	1	GO:0071456	cellular response to hypoxia	BP
144	1	1	1	GO:0071806	protein transmembrane transport	BP
145	1	0	0	GO:0071819	DUBm complex	CC
146	1	0	0	GO:0071885	N-terminal protein N-methyltransferase activity	MF
147	0	0	1	GO:0090153	regulation of sphingolipid biosynthetic process	BP
148	1	1	0	GO:0090606	single-species surface biofilm formation	BP
149	0	0	1	GO:0097043	histone H3-K56 acetylation	BP
150	1	1	0	GO:1900436	positive regulation of filamentous growth of a population of unicellular organisms in response to starvation	BP
151	1	0	0	GO:1902906	proteasome storage granule assembly	BP
152	1	1	0	GO:1903600	glutaminase complex	CC
153	0	0	1	GO:1905356	regulation of snRNA pseudouridine synthesis	BP
154	0	0	1	GO:1990593	nascent polypeptide-associated complex binding	MF
155	0	0	1	GO:1990841	promoter-specific chromatin binding	MF
156	1	1	0	GO:2000222	positive regulation of pseudohyphal growth	BP
157	0	0	1	GO:2000601	positive regulation of Arp2/3 complex-mediated actin nucleation	BP
158	0	0	1	GO:2000819	regulation of nucleotide-excision repair	BP
159	0	0	1	GO:2001108	positive regulation of Rho guanyl-nucleotide exchange factor activity	BP
160	1	0	0	GO:2001159	regulation of protein localization by the Cvt pathway	BP

Showing 142 to 160 of 160 entries